Locus 10321

Sequence ID 3R_DroMel_CAF1
Location 27,712,111 – 27,712,234
Length 123
Max. P 0.831731
window16429 window16430

overview

Window 9

Location 27,712,111 – 27,712,205
Length 94
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 85.61
Mean single sequence MFE -24.17
Consensus MFE -19.91
Energy contribution -20.45
Covariance contribution 0.54
Combinations/Pair 1.14
Mean z-score -1.71
Structure conservation index 0.82
SVM decision value 0.13
SVM RNA-class probability 0.598645
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27712111 94 + 27905053
-------CCAGGCAAUAAAUUAUAUGAAAAUGCCGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCAGCCACAAAAGUCGGAGGAGGAGUACCGAAA
-------...((((................))))(((..(((......)))..)))(((((((...((((..((((....)).)).)))).)))).))).. ( -21.89)
>DroPse_CAF1 39161 86 + 1
GAAGGCUGAAGGCAAUAAAUUAUAUGAAAAUGCCGCCAAAGUGUAACAGCUGCGGUUCCUGCCACAAUCA---------------AGGAGCCCCAGAGAAA
...(((....((((................)))))))............(((.(((((((..........---------------))))))).)))..... ( -21.19)
>DroSec_CAF1 34920 94 + 1
-------CUAGGCAAUAAAUUAUAUGAAAAUGCCGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCGGCCACAAAAGUCGGAGGAGGAGUACCGAAA
-------...((((................))))(((..(((......)))..)))(((((((...(((((((.......)))))))....)))).))).. ( -25.79)
>DroSim_CAF1 35065 94 + 1
-------CUAGGCAAUAAAUUAUAUGAAAAUGCCGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCGGCCACAAAAGUCGGAGGAGGAGUACCGAAA
-------...((((................))))(((..(((......)))..)))(((((((...(((((((.......)))))))....)))).))).. ( -25.79)
>DroEre_CAF1 35584 94 + 1
-------CUGGGCAAUAAAUUAUAUGAAAAUGCCGCCAAAGUAUAACAGCUGCGGUUCGUGCUAAACUCCGGCCGCAAAAGUCGGAGGAGGAGUAUCGAAA
-------...((((................))))(((..(((......)))..)))(((((((...(((((((.......)))))))....)))).))).. ( -25.29)
>DroYak_CAF1 36426 94 + 1
-------CUAAGCAAUAAAUUAUAUGAAAAUGCCGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCGGCCACAAAAGUCGGAGGAGGAGUAUCGAAA
-------........................(((((...(((......))))))))(((((((...(((((((.......)))))))....)))).))).. ( -25.10)
>consensus
_______CUAGGCAAUAAAUUAUAUGAAAAUGCCGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCGGCCACAAAAGUCGGAGGAGGAGUACCGAAA
...............................(((((...(((......))))))))(((((((...(((((((.......)))))))....))))).)).. (-19.91 = -20.45 +   0.54)

alignment

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secondary structure

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dotplot

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Window 0

Location 27,712,137 – 27,712,234
Length 97
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 87.46
Mean single sequence MFE -29.20
Consensus MFE -24.51
Energy contribution -24.98
Covariance contribution 0.48
Combinations/Pair 1.14
Mean z-score -2.16
Structure conservation index 0.84
SVM decision value 0.72
SVM RNA-class probability 0.831731
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27712137 97 + 27905053
CGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCAGCCACAAAAGUCGGAGG--AGGAGUACCGAAACCACAGCAACAAGAAAGAGUCACUACUGG
..(((.((((.....((((.((((((((((...((((..((((....)).)).))--)).)))).)).)))).)))).((........))))))..))) ( -27.90)
>DroSec_CAF1 34946 94 + 1
CGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCGGCCACAAAAGUCGGAGG--AGGAGUACCGAAACCACAGCAACAAGAAAGAGUCAC---UGA
......((((.....((((.((((((((((...(((((((.......))))))).--...)))).)).)))).)))).((........)))))---).. ( -30.40)
>DroSim_CAF1 35091 94 + 1
CGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCGGCCACAAAAGUCGGAGG--AGGAGUACCGAAACCACAGCAACAAGAAAGAGUCAC---UGA
......((((.....((((.((((((((((...(((((((.......))))))).--...)))).)).)))).)))).((........)))))---).. ( -30.40)
>DroEre_CAF1 35610 94 + 1
CGCCAAAGUAUAACAGCUGCGGUUCGUGCUAAACUCCGGCCGCAAAAGUCGGAGG--AGGAGUAUCGAAACCACAGCAACAAGAAAGAGUCAC---UGG
..(((..........((((.((((((((((...(((((((.......))))))).--...)))).)).)))).)))).....((.....))..---))) ( -29.80)
>DroYak_CAF1 36452 94 + 1
CGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCGGCCACAAAAGUCGGAGG--AGGAGUAUCGAAACCACAGCAACAAGAAAGAGUCAC---UGG
......((((.....((((.((((((((((...(((((((.......))))))).--...)))).)).)))).)))).((........)))))---).. ( -30.40)
>DroAna_CAF1 35802 89 + 1
CGCCAAAGCGUAGCAGCUGCGGUUCUUGCCGAAC-------ACAGGAGCUGAGGUACGGGGGCACGGAAACCACAGCAACAAGAAAGAGUCGC---CGG
..((..(((......)))(((..((((.((....-------...)).((((.(((.((......))...))).)))).......))))..)))---.)) ( -26.30)
>consensus
CGCCAAAGUGUAACAGCUGCGGUUCGUGCUAAACUCCGGCCACAAAAGUCGGAGG__AGGAGUACCGAAACCACAGCAACAAGAAAGAGUCAC___UGG
...............((((.((((((((((...(((((((.......)))))))......)))).)).)))).))))...................... (-24.51 = -24.98 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:54:02 2006